Detection of unfragmented ions from timsTOF DIA data

vdemichev / DiaNN

DIA-NN - a universal automated software suite for DIA proteomics data analysis.

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Detection of unfragmented ions from timsTOF DIA data #1142

Open yasathac opened 2 weeks ago

yasathac commented 2 weeks ago

Hello everyone, I am using DIA-NN to analyze ultralow sample data acquired with diaPASEF and VistaScan modes from timsTOF Ultra 2. Multiple peptides of interest fall outside of the fragmentation window and reside in MS1 only. I was wondering if there are any suggestions on increasing the detection capabilities for these peptides through DIANN instead of running a new acqusition? Thank you!

vdemichev commented 2 weeks ago

Hi,

While in theory it is possible to identify peptides based on MS1 signal only, this is not currently supported in DIA-NN, i.e. only peptides that are being fragmented will be identified.

Best, Vadim